[Molecuilder-devel] [SCM] annotated tag v1.4.12 created. v1.4.12

[git at ins.uni-bonn.de]

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The annotated tag, v1.4.12 has been created
        at  8040ff39e1fe7f4360fc961e0654a1734273e821 (tag)
   tagging  0ea4ddbf6833adf1a4a2ada1981935715775879f (commit)
  replaces  v1.4.11
 tagged by  Frederik Heber
        on  Wed Aug 5 09:12:47 2015 +0200

- Log -----------------------------------------------------------------
Preliminary version for working guicheck tests.

This version contains the following branches:
0ea4ddb	Candidate_v1.4.12 (dist fixes, mem fixes and cleaning of Action and
	related interfaces)
c66ae66	GuiCheck_TestFixes (several test fixes such that guicheck regression
	tests are properly constructed via the create script)
561b945 SeparatingOutQtThreads (Adding mutexes in Qt code parts for a start)
9ad4d61 AddingConstDescriptors (descriptors now allow const access, hence they
	don't cause updates via ObservedIterators, many World getters to atoms
	and molecules now have explicit const versions)
a4dee7c	Fixing_MolecuilderGui (Initial GUI fixes)

Frederik Heber (80):
      FIX: Regression test set-parameters-mpqc undo compared against wrong file.
      FIX: parser-parameters in regression tests basis and maxiter contained white spaces.
      FIX: print on CommandHelp("help") not required in python regression test.
      Gui is returning error code of 5 (in test mode) if (last) action failed.
      GLWorldScene::moleculeInserted() gets moleculeId_t as param.
      GLWorldScene::atomInserted() also adds NULL object to ..inSceneMap.
      FIX: QtMoleculeListView::moleculeSelected() did not check for presence of molitem.
      FIX: GLWorldScene::changeAtomId() reinserted with oldid instead of newid.
      Fixed ObserverLog message in GLWorldView.
      FIX: World does not to heed updates from internal MoleculeListClass.
      Changed hoverChanged() from mol* to moleculeId_t.
      QtMoleculeItem now uses moleculeId_t instead molecule*.
      QtElementList now listens to AtomObserver and not MoleculeListClass anymore.
      FIX: World does not sign on to molecule changes.
      Molecule has new channel FormulaChanged used by specific QtMoleculeItem.
      tempcommit: Attempt to replace QtElementList::refill() by faster system.
      FIX: createGuiChecks can handle multi-lines.
      DOCU: Corrected userguide.
      FIX: molecule's Formula is not changed when atom changes element.
      atom::getMolecule() now returns ptr to const molecule.
      World::getMolecules..() now has const versions as well.
      World::getAtoms() now has const versions as well.
      Replaced getMolecule() by const access version where possible.
      Replaced World::getAllMolecules() wherever possible by const version.
      Replaced World::getAtom() wherever possible by const version.
      Replaced World::getAllAtoms() by const version where possible.
      Replaced all World::getSelected...() to const version where possible.
      Converted FormatParser::save() to using vector of const atom ptrs.
      FIX: GLMoleculeObject_molecule() may overlap with atomInserted() signal.
      FIX: QtInfoBox now works mostly on ids.
      FIX: QtElementList does not have a changed() signal.
      FIX: GLMoleculeObject_molecule was not informed of atom index change.
      Removed lots of code in GLWorldScene that now resides in GLMoleculeObject_molecule.
      UIs are now initialized before any action takes place.
      Removed GLMoleculeObject_molecule's init() and reinit().
      FIX: GLWorldScene/View capture all missed signals for each GLMoleculeObject_molecule.
      FIX: GLWorldView must not listen to moleculeRemoved but to its subjectKilled.
      FIX: Fixing atomicNumber_t atomicId_t in atomRemoved and atomInserted.
      QtInfoBox updates information on update signal.
      FIX: QDebugStream is now thread-safe.
      Extracted signing on to molecule into activateObserver.
      FIX: GLWorldScene did not initialize SelectionMode properly.
      FIX: GLWorldView was signed in to atomInserted and atomRemoved without any need.
      FIX: QtUIFactory copied to wrong argv.
      Storing the id of the main thread in static global variable.
      FIX: QtHomologyList::refill() is now called via signal/slot.
      FIX: QtMoleculeItem would not correctly signOff prior to molecule being destroyed.
      Added QMutex to QtElementList for refill().
      TEMP: Removed QtLogBox for the moment.
      FIX: QtElementList now uses new updateElement().
      FIX: QtTimeLine would cause another WorldSetTime action.
      FIX: Cuboid_impl::getNormal() did not take numerical imprecision into account.
      FIX: ActionQueue::isIdle() states whether actions are executed or not.
      FIX: QtMoleculeListView caused Command to be executed when selection changed internally.
      FIX: MakroAction's outputAsPython() uses outputAsPython() not outputAsCLI().
      Added TriangleMatcher to safely compare tesselation .dat files.
      FIX: Added molecuilderguitest to testsuite dependencies.
      FIX: tests/regression FragmentationAutomation had a white space after line break.
      FIX: QTUIFactory's test-single was not working right.
      executePythonScriptFile() calls executePythonScript() now.
      Group item with atom count of 0 is confusing in QtMoleculeList, creating with empty string.
      FIX: atom_bondedparticle signatures changed to more const versions.
      FIX: Molecule has new signal IndexChanged.
      FIX: atom_atominfo lacked some notifies or had them wrong.
      Added getSelected..Ids() for both atoms and molecules.
      Added Action::setOptionValue() which allows setting the option via a string.
      Added TriangleMatcher to safely compare tesselation .dat files.
      TESTFIX: regression test SubgraphDissection Redo was broken.
      TESTFIX: atom selection regression tests with shapes were very noisy and hence very slow.
      TESTFIX: regression test DepthFirstSearch had extra linebreak.
      FIX: Added Parameters Value_Elements to correctly set vector of elements from string.
      TESTFIX: selection molecule by name had escaped ticks.
      TESTFIX: Added AdjacencyMatcher to correctly compare .adj files in save-adjacency regression test.
      DISTFIX: Additional types.hpp in AdjacencyMatcher/Makefile.am.
      DISTFIX: adjacencymatcher and trianglematcher are check_PROGRAMS, not bin_...
      FIX: Adjacency's operator<<() printed fixed number (3) of entries.
      Action::isActive() is now const member function.
      Cleaned up ActionQueue's interface: Actions are always cloned.
      DOCU: Enhanced description of test policy on version update.
      Set version to v1.4.12.

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